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Breaking: refactor

Breaking: refactor #32

Triggered via pull request January 23, 2025 19:24
@behingerbehinger
synchronize #8
unfold07
Status Failure
Total duration 19m 3s
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11 errors
Julia 1 - ubuntu-latest - x64 - pull_request
Process completed with exit code 1.
Documentation: ../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L44
failed to run `@example` block in src/EEGstats.md:21-26 ```@example eeg formula = @formula(0 ~ 1 + condition) models = map((d, ev) -> (fit(UnfoldModel, formula, DataFrame(ev), d, ), ev.subject[1]), eachslice(data; dims=3), groupby(events, :subject)) ``` exception = LoadError: UndefVarError: `@formula` not defined in `Main.__atexample__named__eeg` Suggestion: check for spelling errors or missing imports. Hint: a global variable of this name may be made accessible by importing StatsModels in the current active module Main Hint: a global variable of this name may be made accessible by importing Unfold in the current active module Main Hint: a global variable of this name may be made accessible by importing MixedModels in the current active module Main Hint: a global variable of this name may be made accessible by importing UnfoldSim in the current active module Main Stacktrace: [1] top-level scope @ :0 [2] eval @ ./boot.jl:430 [inlined] [3] #60 @ ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:803 [inlined] [4] cd(f::Documenter.var"#60#62"{Module, Expr}, dir::String) @ Base.Filesystem ./file.jl:112 [5] (::Documenter.var"#59#61"{Documenter.Page, Module, Expr})() @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:802 [6] (::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}})() @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:170 [7] with_logstate(f::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:522 [8] with_logger(f::Function, logger::Base.CoreLogging.ConsoleLogger) @ Base.CoreLogging ./logging/logging.jl:632 [9] capture(f::Documenter.var"#59#61"{Documenter.Page, Module, Expr}; rethrow::Type, color::Bool, passthrough::Bool, capture_buffer::IOBuffer, io_context::Vector{Any}) @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:167 [10] runner(::Type{Documenter.Expanders.ExampleBlocks}, node::MarkdownAST.Node{Nothing}, page::Documenter.Page, doc::Documenter.Document) @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:801 in expression starting at EEGstats.md:22
Documentation: ../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L44
failed to run `@example` block in src/EEGstats.md:30-38 ```@example eeg function add_subject!(df, s) df[!, :subject] .= s return df end allEffects = map((x) -> (effects(Dict(:condition => ["car", "face"]), x[1]), x[2]) |> (x) -> add_subject!(x[1], x[2]), models) |> e -> reduce(vcat, e) plot_erp(allEffects; mapping=(color=:condition, group=:subject)) ``` exception = UndefVarError: `models` not defined in `Main.__atexample__named__eeg` Suggestion: check for spelling errors or missing imports. Stacktrace: [1] top-level scope @ EEGstats.md:35 [2] eval @ ./boot.jl:430 [inlined] [3] #60 @ ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:803 [inlined] [4] cd(f::Documenter.var"#60#62"{Module, Expr}, dir::String) @ Base.Filesystem ./file.jl:112 [5] (::Documenter.var"#59#61"{Documenter.Page, Module, Expr})() @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:802 [6] (::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}})() @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:170 [7] with_logstate(f::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:522 [8] with_logger(f::Function, logger::Base.CoreLogging.ConsoleLogger) @ Base.CoreLogging ./logging/logging.jl:632 [9] capture(f::Documenter.var"#59#61"{Documenter.Page, Module, Expr}; rethrow::Type, color::Bool, passthrough::Bool, capture_buffer::IOBuffer, io_context::Vector{Any}) @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:167 [10] runner(::Type{Documenter.Expanders.ExampleBlocks}, node::MarkdownAST.Node{Nothing}, page::Documenter.Page, doc::Documenter.Document) @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:801
Documentation: ../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L44
failed to run `@example` block in src/EEGstats.md:42-45 ```@example eeg allCoefs = map(m -> (coeftable(m[1]), m[2]) |> (x) -> add_subject!(x[1], x[2]), models) |> e -> reduce(vcat, e) plot_erp(allCoefs; mapping=(group=:subject, col=:coefname)) ``` exception = UndefVarError: `models` not defined in `Main.__atexample__named__eeg` Suggestion: check for spelling errors or missing imports. Stacktrace: [1] top-level scope @ EEGstats.md:43 [2] eval @ ./boot.jl:430 [inlined] [3] #60 @ ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:803 [inlined] [4] cd(f::Documenter.var"#60#62"{Module, Expr}, dir::String) @ Base.Filesystem ./file.jl:112 [5] (::Documenter.var"#59#61"{Documenter.Page, Module, Expr})() @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:802 [6] (::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}})() @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:170 [7] with_logstate(f::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:522 [8] with_logger(f::Function, logger::Base.CoreLogging.ConsoleLogger) @ Base.CoreLogging ./logging/logging.jl:632 [9] capture(f::Documenter.var"#59#61"{Documenter.Page, Module, Expr}; rethrow::Type, color::Bool, passthrough::Bool, capture_buffer::IOBuffer, io_context::Vector{Any}) @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:167 [10] runner(::Type{Documenter.Expanders.ExampleBlocks}, node::MarkdownAST.Node{Nothing}, page::Documenter.Page, doc::Documenter.Document) @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:801
Documentation: ../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L44
failed to run `@example` block in src/EEGstats.md:49-53 ```@example eeg faceCoefs = allCoefs |> x -> subset(x, :coefname => x -> x .== "condition: face") erpMatrix = unstack(faceCoefs, :subject, :time, :estimate) |> x -> Matrix(x[:, 2:end])' |> collect summary(erpMatrix) ``` exception = UndefVarError: `allCoefs` not defined in `Main.__atexample__named__eeg` Suggestion: check for spelling errors or missing imports. Stacktrace: [1] top-level scope @ EEGstats.md:50 [2] eval @ ./boot.jl:430 [inlined] [3] #60 @ ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:803 [inlined] [4] cd(f::Documenter.var"#60#62"{Module, Expr}, dir::String) @ Base.Filesystem ./file.jl:112 [5] (::Documenter.var"#59#61"{Documenter.Page, Module, Expr})() @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:802 [6] (::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}})() @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:170 [7] with_logstate(f::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:522 [8] with_logger(f::Function, logger::Base.CoreLogging.ConsoleLogger) @ Base.CoreLogging ./logging/logging.jl:632 [9] capture(f::Documenter.var"#59#61"{Documenter.Page, Module, Expr}; rethrow::Type, color::Bool, passthrough::Bool, capture_buffer::IOBuffer, io_context::Vector{Any}) @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:167 [10] runner(::Type{Documenter.Expanders.ExampleBlocks}, node::MarkdownAST.Node{Nothing}, page::Documenter.Page, doc::Documenter.Document) @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:801
Documentation: ../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L44
failed to run `@example` block in src/EEGstats.md:57-60 ```@example eeg pvals = clusterdepth(erpMatrix; τ=quantile(TDist(n_subjects - 1), 0.95), nperm=5000); nothing #hide ``` exception = UndefVarError: `quantile` not defined in `Main.__atexample__named__eeg` Suggestion: check for spelling errors or missing imports. Hint: a global variable of this name may be made accessible by importing Statistics in the current active module Main Hint: a global variable of this name may be made accessible by importing StatsBase in the current active module Main Hint: a global variable of this name may be made accessible by importing Distributions in the current active module Main Stacktrace: [1] top-level scope @ EEGstats.md:58 [2] eval @ ./boot.jl:430 [inlined] [3] #60 @ ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:803 [inlined] [4] cd(f::Documenter.var"#60#62"{Module, Expr}, dir::String) @ Base.Filesystem ./file.jl:112 [5] (::Documenter.var"#59#61"{Documenter.Page, Module, Expr})() @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:802 [6] (::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}})() @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:170 [7] with_logstate(f::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:522 [8] with_logger(f::Function, logger::Base.CoreLogging.ConsoleLogger) @ Base.CoreLogging ./logging/logging.jl:632 [9] capture(f::Documenter.var"#59#61"{Documenter.Page, Module, Expr}; rethrow::Type, color::Bool, passthrough::Bool, capture_buffer::IOBuffer, io_context::Vector{Any}) @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:167 [10] runner(::Type{Documenter.Expanders.ExampleBlocks}, node::MarkdownAST.Node{Nothing}, page::Documenter.Page, doc::Documenter.Document) @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:801
Documentation: ../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L44
failed to run `@example` block in src/EEGstats.md:69-74 ```@example eeg faceERP = groupby(faceCoefs, [:time, :coefname]) |> x -> combine(x, :estimate => mean => :estimate, :estimate => std => :stderror); nothing #hide ``` exception = UndefVarError: `groupby` not defined in `Main.__atexample__named__eeg` Suggestion: check for spelling errors or missing imports. Hint: a global variable of this name may be made accessible by importing DataFrames in the current active module Main Hint: a global variable of this name may be made accessible by importing IterTools in the current active module Main Stacktrace: [1] top-level scope @ EEGstats.md:70 [2] eval @ ./boot.jl:430 [inlined] [3] #60 @ ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:803 [inlined] [4] cd(f::Documenter.var"#60#62"{Module, Expr}, dir::String) @ Base.Filesystem ./file.jl:112 [5] (::Documenter.var"#59#61"{Documenter.Page, Module, Expr})() @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:802 [6] (::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}})() @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:170 [7] with_logstate(f::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:522 [8] with_logger(f::Function, logger::Base.CoreLogging.ConsoleLogger) @ Base.CoreLogging ./logging/logging.jl:632 [9] capture(f::Documenter.var"#59#61"{Documenter.Page, Module, Expr}; rethrow::Type, color::Bool, passthrough::Bool, capture_buffer::IOBuffer, io_context::Vector{Any}) @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:167 [10] runner(::Type{Documenter.Expanders.ExampleBlocks}, node::MarkdownAST.Node{Nothing}, page::Documenter.Page, doc::Documenter.Document) @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:801
Documentation: ../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L44
failed to run `@example` block in src/EEGstats.md:78-81 ```@example eeg pvalDF = ClusterDepth.cluster(pvals .<= 0.05) |> x -> DataFrame(:from => x[1] ./ 250, :to => (x[1] .+ x[2]) ./ 250, :coefname => "condition: face") plot_erp(faceERP; stderror=true, pvalue=pvalDF) ``` exception = UndefVarError: `ClusterDepth` not defined in `Main.__atexample__named__eeg` Suggestion: check for spelling errors or missing imports. Hint: ClusterDepth is loaded but not imported in the active module Main. Stacktrace: [1] top-level scope @ EEGstats.md:79 [2] eval @ ./boot.jl:430 [inlined] [3] #60 @ ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:803 [inlined] [4] cd(f::Documenter.var"#60#62"{Module, Expr}, dir::String) @ Base.Filesystem ./file.jl:112 [5] (::Documenter.var"#59#61"{Documenter.Page, Module, Expr})() @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:802 [6] (::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}})() @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:170 [7] with_logstate(f::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:522 [8] with_logger(f::Function, logger::Base.CoreLogging.ConsoleLogger) @ Base.CoreLogging ./logging/logging.jl:632 [9] capture(f::Documenter.var"#59#61"{Documenter.Page, Module, Expr}; rethrow::Type, color::Bool, passthrough::Bool, capture_buffer::IOBuffer, io_context::Vector{Any}) @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:167 [10] runner(::Type{Documenter.Expanders.ExampleBlocks}, node::MarkdownAST.Node{Nothing}, page::Documenter.Page, doc::Documenter.Document) @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:801
Documentation: ../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L44
failed to run `@example` block in src/generated/tutorial/lmm_clusterdepth.md:7-60 ```@example lmm_clusterdepth using UnfoldSim using Unfold using MixedModelsPermutations, ClusterDepth # both necessary to activate correct extension! using UnfoldStats using StatsModels using Random using MixedModels srate = 25 design = MultiSubjectDesign(; n_subjects = 30, n_items = 40, items_between = Dict(:stimtype => ["car", "face"]), ) #both_within = Dict(:condition=>["scrambled","intact"])) contrasts = Dict(:stimtype => DummyCoding()) p1 = MixedModelComponent(; basis = UnfoldSim.p100(; sfreq = srate), formula = @formula(dv ~ 1 + (1 | subject) + (1 | item)), β = [5.0], σs = Dict(:subject => [0.0], :item => [0.0]), contrasts = contrasts, ); n1 = MixedModelComponent(; basis = UnfoldSim.n170(; sfreq = srate), formula = @formula(dv ~ 1 + stimtype + (1 + stimtype | subject) + (1 | item)), β = [1.0, 4], # n170-basis is negative σs = Dict(:subject => [2.0, 0.25], :item => [0.25]), contrasts = contrasts, ); p3 = MixedModelComponent(; basis = UnfoldSim.p300(; sfreq = srate), formula = @formula(dv ~ 1 + (1 | subject) + (1 + stimtype | item)), β = [4.0], σs = Dict(:subject => [1.0], :item => [0.5, 2]), contrasts = contrasts, ); data_e, events = UnfoldSim.simulate( design, [p1, n1, p3], UniformOnset(srate * 2, 10), PinkNoise(; noiselevel = 1); return_epoched = true, ) # 18 times = range(-0.1, 0.5, length = size(data_e, 1)) data_e = reshape(data_e, 1, size(data_e, 1), :) #events.latency .+= repeat(range(0,length=size(data,2),step=size(data,1)),inner=size(events[events.subject.=="S01",:],1)) ``` exception = ArgumentError: Package MixedModels not found in current path. - Run `import Pkg; Pkg.add("MixedModels")` to install the MixedModels package. Stacktrace: [1] macro expansion @ ./loading.jl:2296 [inlined] [2] macro expansion @ ./lock.jl:273 [inlined] [3] __require(into::Module, mod::Symbol) @ Base ./loading.jl:2271 [4] #invoke_in_world#3 @ ./essentials.jl:1089 [inlined] [5] invoke_in_world @ ./essentials.jl:1086 [inlined] [6] require(into::Module, mod::Symbol) @ Base ./loading.jl:2260 [7] eval @ ./boot.jl:430 [inlined] [8] #60 @ ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:803 [inlined] [9] cd(f::Documenter.var"#60#62"{Module, Expr}, dir::String) @ Base.Filesystem ./file.jl:112 [10] (::Documenter.var"#59#61"{Documenter.Page, Module, Expr})() @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:802 [11] (::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}})() @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:170 [12] with_logstate(f::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:522 [13] with_logger(f::Function, logger::Base.CoreLogging.ConsoleLogger) @ Base.CoreLogging ./logging/logging.jl:632 [14] capture(f::Documenter.var"#59#61"{Documenter.Page, Module, Expr}; rethrow::Type, color::Bool, passthrough::Bool, capture_buffer::IOBuffer, io_context::Vector{Any}) @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:167 [15] runner(::Type{Documenter.Expanders.ExampleBlocks}, node::MarkdownAST.Node{Nothing}, page::Documenter.Page, doc::Documenter.Document) @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:801
Documentation: ../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L44
failed to run `@example` block in src/generated/tutorial/lmm_clusterdepth.md:64-77 ```@example lmm_clusterdepth m = fit( UnfoldModel, [ Any => ( @formula(0 ~ 1 + stimtype + (1 + stimtype | item) + (1 + stimtype | subject)), times, ), ], events, data_e, ); nothing #hide ``` exception = UndefVarError: `times` not defined in `Main.__atexample__named__lmm_clusterdepth` Suggestion: check for spelling errors or missing imports. Stacktrace: [1] top-level scope @ lmm_clusterdepth.md:65 [2] eval @ ./boot.jl:430 [inlined] [3] #60 @ ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:803 [inlined] [4] cd(f::Documenter.var"#60#62"{Module, Expr}, dir::String) @ Base.Filesystem ./file.jl:112 [5] (::Documenter.var"#59#61"{Documenter.Page, Module, Expr})() @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:802 [6] (::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}})() @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:170 [7] with_logstate(f::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:522 [8] with_logger(f::Function, logger::Base.CoreLogging.ConsoleLogger) @ Base.CoreLogging ./logging/logging.jl:632 [9] capture(f::Documenter.var"#59#61"{Documenter.Page, Module, Expr}; rethrow::Type, color::Bool, passthrough::Bool, capture_buffer::IOBuffer, io_context::Vector{Any}) @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:167 [10] runner(::Type{Documenter.Expanders.ExampleBlocks}, node::MarkdownAST.Node{Nothing}, page::Documenter.Page, doc::Documenter.Document) @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:801
Documentation: ../../../.julia/packages/Documenter/Bs999/src/utilities/utilities.jl#L44
failed to run `@example` block in src/generated/tutorial/lmm_clusterdepth.md:81-91 ```@example lmm_clusterdepth coefficient = 2 pvalues( MersenneTwister(1), m, data_e, coefficient; n_permutations = 10, clusterforming_threshold = 1.8, ) ``` exception = UndefVarError: `m` not defined in `Main.__atexample__named__lmm_clusterdepth` Suggestion: check for spelling errors or missing imports. Stacktrace: [1] top-level scope @ lmm_clusterdepth.md:83 [2] eval @ ./boot.jl:430 [inlined] [3] #60 @ ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:803 [inlined] [4] cd(f::Documenter.var"#60#62"{Module, Expr}, dir::String) @ Base.Filesystem ./file.jl:112 [5] (::Documenter.var"#59#61"{Documenter.Page, Module, Expr})() @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:802 [6] (::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}})() @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:170 [7] with_logstate(f::IOCapture.var"#5#9"{DataType, Documenter.var"#59#61"{Documenter.Page, Module, Expr}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}, IOContext{Base.PipeEndpoint}}, logstate::Base.CoreLogging.LogState) @ Base.CoreLogging ./logging/logging.jl:522 [8] with_logger(f::Function, logger::Base.CoreLogging.ConsoleLogger) @ Base.CoreLogging ./logging/logging.jl:632 [9] capture(f::Documenter.var"#59#61"{Documenter.Page, Module, Expr}; rethrow::Type, color::Bool, passthrough::Bool, capture_buffer::IOBuffer, io_context::Vector{Any}) @ IOCapture ~/.julia/packages/IOCapture/Y5rEA/src/IOCapture.jl:167 [10] runner(::Type{Documenter.Expanders.ExampleBlocks}, node::MarkdownAST.Node{Nothing}, page::Documenter.Page, doc::Documenter.Document) @ Documenter ~/.julia/packages/Documenter/Bs999/src/expander_pipeline.jl:801